miRNA display CGI


Results 1 - 20 of 21 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11390 3' -55.3 NC_003084.1 + 53617 0.66 0.861412
Target:  5'- gGGCC----GCGUGGGgAGCACCAa-- -3'
miRNA:   3'- -CCGGuacaUGCGCCCgUUGUGGUguu -5'
11390 3' -55.3 NC_003084.1 + 65435 0.66 0.859025
Target:  5'- aGGCCAUGgu-GCGGuacaucccgaugcuGCAAgcCGCCGCAAu -3'
miRNA:   3'- -CCGGUACaugCGCC--------------CGUU--GUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 102962 0.66 0.853381
Target:  5'- aGGCCcaGUGCGUGuGGCGAacCGCCuCAAu -3'
miRNA:   3'- -CCGGuaCAUGCGC-CCGUU--GUGGuGUU- -5'
11390 3' -55.3 NC_003084.1 + 47124 0.66 0.848459
Target:  5'- cGGCCGUGUGCuaccuggaccuGgaggaguacgccgacCGGGCAaaACGCCACc- -3'
miRNA:   3'- -CCGGUACAUG-----------C---------------GCCCGU--UGUGGUGuu -5'
11390 3' -55.3 NC_003084.1 + 68701 0.66 0.842619
Target:  5'- gGGCCGuUGUuuGUGGuGCuagcuacaaauguuAGCACCACAAa -3'
miRNA:   3'- -CCGGU-ACAugCGCC-CG--------------UUGUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 69749 0.66 0.836679
Target:  5'- cGCCAUGgucgaGUGGGCAaacguuucGCGCgGCGAu -3'
miRNA:   3'- cCGGUACaug--CGCCCGU--------UGUGgUGUU- -5'
11390 3' -55.3 NC_003084.1 + 74461 0.66 0.836679
Target:  5'- uGCCAaaUACGUGGcGcCAGCGCUACAGu -3'
miRNA:   3'- cCGGUacAUGCGCC-C-GUUGUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 60976 0.67 0.819174
Target:  5'- uGGCaguuUGUGggauuucgUGCGGGCaAGCACCACc- -3'
miRNA:   3'- -CCGgu--ACAU--------GCGCCCG-UUGUGGUGuu -5'
11390 3' -55.3 NC_003084.1 + 13127 0.67 0.800934
Target:  5'- uGGUCGUGguuUGCGUaaauGGGCAGCGuuGCGAu -3'
miRNA:   3'- -CCGGUAC---AUGCG----CCCGUUGUggUGUU- -5'
11390 3' -55.3 NC_003084.1 + 14584 0.67 0.791562
Target:  5'- gGGCCgAUGUGucCGagaggcaGGGCAuuuugcugucguGCACCACAAu -3'
miRNA:   3'- -CCGG-UACAU--GCg------CCCGU------------UGUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 60857 0.67 0.782994
Target:  5'- cGCCGucUGUuuGCGGGCcuucgaugauuacguGCGCCGCGAg -3'
miRNA:   3'- cCGGU--ACAugCGCCCGu--------------UGUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 64727 0.67 0.772362
Target:  5'- aGGCCcgGUugGCGcuGGCcauAUGCCGCu- -3'
miRNA:   3'- -CCGGuaCAugCGC--CCGu--UGUGGUGuu -5'
11390 3' -55.3 NC_003084.1 + 30788 0.68 0.762554
Target:  5'- aGGCCcgGUAUGCGcaGCGugAgCACGAa -3'
miRNA:   3'- -CCGGuaCAUGCGCc-CGUugUgGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 16596 0.68 0.762554
Target:  5'- aGCCGUggGUAUGCGGGCcuCACUAa-- -3'
miRNA:   3'- cCGGUA--CAUGCGCCCGuuGUGGUguu -5'
11390 3' -55.3 NC_003084.1 + 87053 0.68 0.736495
Target:  5'- uGGCCAcugaacGUAUGCGGGCGcuugagcuggagaagGCGCgGCGu -3'
miRNA:   3'- -CCGGUa-----CAUGCGCCCGU---------------UGUGgUGUu -5'
11390 3' -55.3 NC_003084.1 + 46920 0.68 0.732423
Target:  5'- -uUCGUGUccauaaaguccaGCGCcGGCAGCACCACGu -3'
miRNA:   3'- ccGGUACA------------UGCGcCCGUUGUGGUGUu -5'
11390 3' -55.3 NC_003084.1 + 72934 0.7 0.647627
Target:  5'- gGGCCAUGUugaagcaGCGCccgucgcGGCAACGgCGCGAa -3'
miRNA:   3'- -CCGGUACA-------UGCGc------CCGUUGUgGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 39627 0.71 0.584995
Target:  5'- cGCCGUuUGCGCaGGUuccGCACCACAAu -3'
miRNA:   3'- cCGGUAcAUGCGcCCGu--UGUGGUGUU- -5'
11390 3' -55.3 NC_003084.1 + 57746 0.71 0.574462
Target:  5'- uGGCCGUGUACGUGGcCGACAUgGa-- -3'
miRNA:   3'- -CCGGUACAUGCGCCcGUUGUGgUguu -5'
11390 3' -55.3 NC_003084.1 + 24832 0.72 0.512426
Target:  5'- aGGUCGUGcuagAgGCGGGCAAUaauuauuguuugGCCACAAg -3'
miRNA:   3'- -CCGGUACa---UgCGCCCGUUG------------UGGUGUU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.